SPOCTOPUS: a combined predictor of signal peptides and membrane protein topology.
CONCLUSIONS
SPOCTOPUS is a method for combined prediction of signal peptides and membrane protein topology, suitable for genome-scale studies. Its objective is to minimize false predictions of transmembrane regions as signal peptides and vice versa. We provide a description of the SPOCTOPUS algorithm together with a performance evaluation where SPOCTOPUS compares favorably with state-of-the-art methods for signal peptide and topology predictions.


BACKGROUND
SPOCTOPUS is available as a web server and both the source code and benchmark data are available for download at http://octopus.cbr.su.se/
Viklund
Håkan
H
Department of Biochemistry and Biophysics, Center for Biomembrane Research, Stockholm Bioinformatics Center, The Arrhenius Laboratories for Natural Sciences, Stockholm University, SE-10691 Stockholm, Sweden.
Bernsel
Andreas
A
Skwark
Marcin
M
Elofsson
Arne
A
D000465:Algorithms; D004926:Escherichia coli / Q000235:genetics; D016680:Genome, Bacterial; D016681:Genome, Fungal; D008565:Membrane Proteins / Q000737:chemistry*; D016571:Neural Networks, Computer; D021382:Protein Sorting Signals; D012441:Saccharomyces cerevisiae / Q000235:genetics; D020539:Sequence Analysis, Protein / Q000379:methods; D012984:Software
D008565:Membrane Proteins; D021382:Protein Sorting Signals